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comparison qiime2-2020.8/qiime_feature-table_subsample.xml @ 0:5c352d975ef7 draft

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author florianbegusch
date Thu, 03 Sep 2020 09:33:04 +0000
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1 <?xml version="1.0" ?>
2 <tool id="qiime_feature-table_subsample" name="qiime feature-table subsample"
3 version="2020.8">
4 <description>Subsample table</description>
5 <requirements>
6 <requirement type="package" version="2020.8">qiime2</requirement>
7 </requirements>
8 <command><![CDATA[
9 qiime feature-table subsample
10
11 --i-table=$itable
12
13 --p-subsampling-depth=$psubsamplingdepth
14
15 --p-axis=$paxis
16
17 --o-sampled-table=osampledtable
18
19 #if str($examples) != 'None':
20 --examples=$examples
21 #end if
22
23 ;
24 cp osampledtable.qza $osampledtable
25
26 ]]></command>
27 <inputs>
28 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to be sampled. [required]" name="itable" optional="False" type="data" />
29 <param label="--p-subsampling-depth: INTEGER Range(1, None) The total number of samples or features to be randomly sampled. Samples or features that are reduced to a zero sum will not be included in the resulting table. [required]" name="psubsamplingdepth" optional="False" type="text" />
30 <param label="--p-axis: " name="paxis" optional="False" type="select">
31 <option value="sample">sample</option>
32 <option value="feature">feature</option>
33 </param>
34 <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" />
35
36 </inputs>
37
38 <outputs>
39 <data format="qza" label="${tool.name} on ${on_string}: sampledtable.qza" name="osampledtable" />
40
41 </outputs>
42
43 <help><![CDATA[
44 Subsample table
45 ###############################################################
46
47 Randomly pick samples or features, without replacement, from the table.
48
49 Parameters
50 ----------
51 table : FeatureTable[Frequency]
52 The feature table to be sampled.
53 subsampling_depth : Int % Range(1, None)
54 The total number of samples or features to be randomly sampled. Samples
55 or features that are reduced to a zero sum will not be included in the
56 resulting table.
57 axis : Str % Choices('sample', 'feature')
58 The axis to sample over. If "sample" then samples will be randomly
59 selected to be retained. If "feature" then a random set of features
60 will be selected to be retained.
61
62 Returns
63 -------
64 sampled_table : FeatureTable[Frequency]
65 The resulting subsampled feature table.
66 ]]></help>
67 <macros>
68 <import>qiime_citation.xml</import>
69 </macros>
70 <expand macro="qiime_citation"/>
71 </tool>